genome.fa.s8424.2.7.7.80.10.50.1000.15.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01008424.1 Hibiscus syriacus cultivar Beakdansim tig00111207_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4198033

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  15  of  16  ( 1819 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3902057--3902095	14	2.7	14	84	15	53	15	20	0	64	1.30
3902943--3903007	6	11.3	6	77	11	57	78	3	16	1	0.96
3902937--3903008	17	4.0	16	74	22	63	77	2	18	1	0.96
3902941--3903000	19	3.0	21	71	14	63	75	3	20	1	1.04
3902943--3903008	22	2.9	22	77	4	69	77	3	18	1	0.98
3911619--3911660	19	2.2	19	86	0	57	0	9	14	76	1.02
3911626--3911662	19	1.9	19	94	0	65	0	8	13	78	0.96
3913824--3913873	19	2.5	21	90	6	77	48	6	12	34	1.65
3914751--3914812	30	2.0	31	87	3	90	54	9	8	27	1.61
3915072--3915114	23	1.9	21	81	13	50	32	18	13	34	1.90
3920058--3920114	28	2.1	26	83	6	69	8	14	15	61	1.56
3928211--3928253	23	1.9	21	81	13	50	32	18	13	34	1.90
3929899--3929956	24	2.4	24	91	5	91	32	34	18	13	1.91
3931472--3931531	10	5.3	11	76	18	52	76	3	18	1	1.00
3931472--3931531	16	3.8	16	69	18	54	76	3	18	1	1.00
3933554--3933678	34	3.8	34	72	19	120	41	10	16	31	1.82
3933957--3934002	24	2.0	23	83	12	58	19	6	4	69	1.28
3933997--3934143	44	3.5	42	80	11	158	28	1	1	68	1.06
3934074--3934196	9	12.7	9	72	16	68	17	4	0	76	1.01
3933999--3934139	39	3.5	40	81	12	146	28	1	1	68	1.06
3934068--3934130	31	2.0	33	84	12	87	23	3	0	73	0.98
3934096--3934172	24	3.2	24	78	15	79	20	3	1	74	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3934129--3934189	13	4.5	13	76	8	59	13	6	1	78	1.01
3934000--3934174	83	2.1	82	79	10	185	25	2	1	70	1.09
3934132--3934237	45	2.4	45	81	10	112	15	9	1	73	1.17
3934284--3934313	15	2.0	15	100	0	60	20	20	0	60	1.37
3937873--3937906	16	2.1	16	89	10	52	76	8	14	0	1.01
3937895--3937969	23	3.2	23	78	14	66	76	9	13	1	1.09
3938581--3938631	22	2.3	22	96	0	93	35	27	11	25	1.91
3940073--3940124	21	2.6	21	90	6	81	32	13	7	46	1.72
3940827--3940907	35	2.3	34	83	12	101	75	3	16	4	1.12
3944182--3944233	21	2.6	21	90	6	81	32	13	7	46	1.72
3945388--3945494	37	2.9	37	90	2	162	28	24	11	36	1.90
3945384--3945489	36	2.9	35	87	4	104	26	23	12	37	1.90
3945403--3945785	100	3.8	100	87	5	505	31	19	11	37	1.87
3945605--3945690	36	2.4	36	86	3	111	25	18	13	41	1.88
3945673--3945731	30	2.0	30	86	6	84	40	16	10	32	1.82
3945745--3945859	36	3.1	36	82	4	158	30	19	11	39	1.86
3945900--3946014	33	3.5	33	89	5	162	37	19	11	32	1.87
3945969--3946161	67	2.8	67	84	3	251	28	20	12	38	1.89
3946733--3947125	105	3.8	101	78	9	350	33	25	20	20	1.97
3946867--3947125	98	2.6	98	83	5	331	33	25	21	19	1.97
3947721--3947845	34	3.8	34	72	19	120	41	10	16	31	1.82
3948114--3948174	23	2.8	21	74	16	54	21	6	4	67	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3948128--3948173	24	2.0	23	83	12	58	19	6	4	69	1.28
3948244--3948365	9	12.7	9	70	17	59	18	5	0	75	1.05
3948170--3948312	40	3.5	40	77	13	132	28	2	1	67	1.10
3948238--3948311	31	2.3	34	84	11	93	25	2	0	71	0.99
3948453--3948482	15	2.0	15	100	0	60	20	20	0	60	1.37
3951054--3951093	19	2.0	20	95	4	73	22	15	0	62	1.32
3951362--3951410	19	2.7	17	81	12	53	75	4	18	2	1.06
3958898--3958922	11	2.3	11	100	0	50	84	8	0	8	0.79
3977737--3977776	12	3.6	12	77	19	50	0	0	12	87	0.54
3977730--3977773	20	2.2	20	87	0	61	0	2	13	84	0.73
3977730--3977776	21	2.2	21	88	0	67	0	2	14	82	0.75
3977747--3977772	9	2.9	9	100	0	52	0	0	7	92	0.39
3977737--3977774	20	1.9	20	94	0	67	0	0	10	89	0.49
3979694--3979778	11	7.2	11	72	22	66	31	36	3	28	1.74
3979691--3979795	36	2.9	36	94	1	176	30	37	4	27	1.77
3980245--3980288	9	4.6	9	86	11	52	79	2	15	2	0.93
3983892--3983957	13	5.5	11	74	22	62	33	34	3	28	1.73
3983870--3983974	36	2.9	36	94	1	176	29	37	4	28	1.78
4005241--4005279	15	2.7	15	81	18	55	0	12	10	76	1.01
4005220--4005265	20	2.2	21	84	7	58	0	8	15	76	1.02
4006591--4006641	19	2.6	20	87	3	68	45	5	15	33	1.71
4007270--4007357	35	2.5	36	84	1	124	31	3	35	29	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4010548--4010600	16	3.2	16	77	17	56	66	0	18	15	1.26
4011226--4011305	35	2.2	36	86	2	117	30	3	37	28	1.75
4014496--4014548	16	3.2	16	77	17	56	66	0	18	15	1.26
4015175--4015254	35	2.2	36	86	2	108	30	2	37	30	1.71
4022961--4022989	12	2.4	12	100	0	58	41	10	31	17	1.83
4028769--4028825	28	2.1	26	83	6	69	59	15	15	8	1.59
4033919--4033982	31	2.1	31	82	11	78	60	1	21	15	1.43
4034175--4034206	13	2.6	13	90	9	50	0	21	0	78	0.76
4034383--4034449	33	2.1	33	83	13	86	58	0	26	14	1.37
4034587--4034663	35	2.2	35	80	0	91	31	3	36	28	1.75
4039546--4039578	11	3.0	11	100	0	66	9	18	18	54	1.69
4048737--4048784	24	2.0	23	84	11	62	0	16	4	79	0.89
4052692--4052721	13	2.4	13	94	5	53	26	30	0	43	1.55
4062257--4062286	13	2.4	13	94	5	53	26	30	0	43	1.55
4065030--4065090	28	2.2	28	79	5	70	9	14	14	60	1.58
4072288--4072314	11	2.5	11	100	0	54	77	14	7	0	0.97
4072280--4072321	20	2.1	20	90	0	66	76	16	7	0	1.00
4072279--4072321	9	4.6	9	80	11	50	74	18	6	0	1.04
4077283--4077333	19	2.6	20	90	3	77	43	5	15	35	1.71
4078248--4078304	30	1.9	30	85	0	78	56	8	5	29	1.52
4081472--4081522	19	2.6	20	90	3	77	43	5	15	35	1.71
4085640--4085671	16	2.0	16	100	0	64	43	6	18	31	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4087771--4087836	5	13.8	5	69	15	50	1	21	3	74	1.04
4087771--4087836	9	6.9	10	70	14	50	1	21	3	74	1.04
4087787--4087838	17	2.8	18	86	13	63	1	19	5	73	1.14
4089257--4089288	16	2.0	16	100	0	64	43	6	18	31	1.75
4091386--4091459	5	15.8	5	68	18	52	1	21	2	74	1.02
4091379--4091461	18	4.6	18	73	18	66	1	22	3	72	1.08
4091410--4091461	17	2.9	18	81	18	65	1	19	5	73	1.14
4091379--4091459	27	2.9	27	77	17	85	1	23	2	72	1.03
4092880--4092911	16	2.0	16	100	0	64	43	6	18	31	1.75
4094855--4094916	19	3.2	19	72	21	56	1	16	3	79	0.95
4095184--4095224	20	2.0	20	86	9	57	63	0	17	19	1.31
4099432--4099483	19	2.6	21	90	6	81	46	5	13	34	1.67
4111689--4111740	21	2.6	21	90	6	81	32	13	7	46	1.72
4112152--4112191	19	2.0	20	90	4	64	20	15	0	65	1.28
4112148--4112194	19	2.6	18	83	12	60	19	14	0	65	1.26
4115317--4115369	8	6.5	8	79	12	54	81	0	16	1	0.79
4115324--4115369	23	2.1	21	88	8	65	80	0	17	2	0.81
4115316--4115368	14	3.8	15	76	14	60	79	0	18	1	0.83
4115317--4115371	15	3.6	14	83	16	65	80	0	18	1	0.81
4115316--4115371	27	2.1	27	83	6	69	78	0	19	1	0.84
4119808--4119893	13	7.2	12	72	22	58	29	3	37	30	1.74
4119790--4119894	36	2.9	36	94	1	176	28	5	35	30	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4123889--4123922	6	5.5	6	89	3	50	0	17	2	79	0.86
4124319--4124404	13	7.2	12	72	22	58	29	3	37	30	1.74
4124301--4124405	36	2.9	36	94	1	185	29	3	36	30	1.75
4127898--4127948	19	2.6	20	90	3	77	43	5	15	35	1.71
4132299--4132356	27	2.1	27	96	0	107	32	18	15	32	1.93
4135607--4135681	24	3.0	26	71	13	66	5	16	13	65	1.44
4135636--4135688	24	2.2	24	83	3	63	7	15	16	60	1.57
4136520--4136587	26	2.6	26	88	0	91	30	20	30	17	1.96
4141196--4141245	12	4.2	12	80	7	57	2	16	4	78	1.00
4141198--4141253	15	3.7	15	78	17	55	1	17	5	75	1.09

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16